Gene_locus Report for: psesm-q87y20

Other strains: Pseudomonas syringae (pv. tomato; pv. syringae (strain B728a); pv. phaseolicola (strain 1448A / Race 6); pv. actinidiae (ICMP 9617; ICMP 18884; ICMP 19497; ICMP 18807); pv. actinidiae; pv. maculicola; pv. antirrhini; pv. berberidis; pv. apii; pv. viburni; pv. theae; pv. morsprunorum str. M302280; lachrymans str. M302278

(Below N is a link to NCBI taxonomic web page and E link to ESTHER at designed phylum.)
> cellular organisms: N E > Bacteria: N E > Proteobacteria: N E > Gammaproteobacteria: N E > Pseudomonadales: N E > Pseudomonadaceae: N E > Pseudomonas: N E > Pseudomonas syringae group: N E > Pseudomonas syringae group genomosp. 1: N E > Pseudomonas syringae: N E

6_AlphaBeta_hydrolase : psesy-PHAG1Pseudomonas syringae (pv. tomato) 3-hydroxyacyl-CoA-acyl carrier protein transferase, psesy-PHAG2Pseudomonas syringae (pv. tomato) 3-hydroxyacyl-CoA-acyl carrier protein transferase, psesy-PSPTO1863Pseudomonas syringae (pv. tomato) hydrolase, alpha/beta fold family, psesy-PSPTO2042Pseudomonas syringae (pv. tomato) conserved hypothetical protein, psesy-PSPTO2217Pseudomonas syringae (pv. tomato) conserved hypothetical protein, psesy-PSPTO2218Pseudomonas syringae (pv. tomato) hydrolase, alpha/beta fold family, psesy-PSPTO2293Pseudomonas syringae (pv. tomato) esterase/lipase/thioesterase family protein, psesy-PSPTO2495Pseudomonas syringae (pv. tomato) hydrolase, alpha/beta fold family, psesy-PSPTO2674Pseudomonas syringae (pv. tomato) 3-oxoadipate enol-lactone hydrolase family protein, psesy-PSPTO4089Pseudomonas syringae (pv. tomato) hydrolase, alpha/beta fold family, psesy-PSPTO4708Pseudomonas syringae (pv. tomato) (pv. glycinea) coronatine biosynthesis protein, putative cmae, psesy-PSPTO5448Pseudomonas syringae (pv. tomato) conserved hypothetical protein, psesy-syrcPseudomonas syringae pv. syringae thioesterase (syrC) gene.
A85-EsteraseD-FGH : psesy-PSPTO1559Pseudomonas syringae (pv. tomato) esterase, putative.
ABHD13-BEM46 : psesy-PSPTO1504Pseudomonas syringae (pv. tomato; pv. lachrymans) lipoprotein, putative, psesy-PSPTO3572Pseudomonas syringae (pv. tomato) conserved hypothetical protein.
abh_upf0017 : psesy-PSPTO0421Pseudomonas syringae (pv. tomato and T1) hydrolase, alpha/beta fold family.
abh_upf00227 : psesy-PSPTO4964Pseudomonas syringae (pv. tomato) (strains DC3000; T1) conserved hypothetical protein.
Aclacinomycin-methylesterase_RdmC : psesy-PSPTO4178Pseudomonas syringae (pv. tomato) hydrolase, alpha/beta fold family.
AlphaBeta_hydrolase : psesy-PSPTO0715Pseudomonas syringae (pv. tomato) conserved hypothetical protein, psesy-PSPTO3264Pseudomonas syringae (pv. tomato) hydrolase, alpha/beta fold family.
Atu1826-like : psesy-PSPTO4430Pseudomonas syringae (pv. tomato) conserved hypothetical protein.
Bacterial_lip_FamI.8 : psesy-PSPTO3282Pseudomonas syringae (multiple patovars) lipoprotein, putative.
BD-FAE : psesy-PSPTO4843Pseudomonas syringae (pv. tomato) esterase/lipase/thioesterase family protein.
BioH : psesy-BIOHPseudomonas syringae (pv. tomato) bioh protein.
Carboxymethylbutenolide_lactonase : psesy-PSPTO3138Pseudomonas syringae (patovars lachrymans; tomato; actinidiae;. morsprunorum; theae), Pseudomonas avellanae, 3-oxoadipate enol-lactone hydrolase, psesx-a0a085v8q0Pseudomonas syringae. 3-oxoadipate enol-lactonase, psesx-a0a085uxb9Pseudomonas syringae. 3-oxoadipate enol-lactonase, psesx-a0a085vki6Pseudomonas syringae; Pseudomonas sp. 3-oxoadipate enol-lactonase, psesx-a0a085vba2Pseudomonas syringae; Pseudomonas sp. 3-oxoadipate enol-lactonase, psesx-a0a085v8g7Pseudomonas syringae. 3-oxoadipate enol-lactonase, psesx-a0a085v5f9Pseudomonas syringae. 3-oxoadipate enol-lactonase.
Dienelactone_hydrolase : psesy-PSPTO1677Pseudomonas syringae (pv. tomato) dienelactone hydrolase family protein, psesy-PSPTO2209Pseudomonas syringae (pv. tomato) dienelactone hydrolase family protein.
Epoxide_hydrolase : psesy-PSPTO0162Pseudomonas syringae (pv. tomato) pv. phaseolicola (strain 1448A / Race 6) 3-oxoadipate enol-lactone hydrolase family protein.
Haloperoxidase : psesy-PSPTO0675Pseudomonas syringae (pv. tomato) arylesterase.
Homoserine_transacetylase : psesm-METXPseudomonas syringae, Pseudomonas savastanoi, homoserine o-acetyltransferase.
Hormone-sensitive_lipase_like : psesy-PSPTO1766Pseudomonas syringae (pv. tomato, phaseolicola, glycinea), Pseudomonas savastanoi lipase, psesy-PSPTO4277Pseudomonas syringae (pv. tomato) esterase/lipase/thioesterase family protein, psesy-PSPTO4781Pseudomonas syringae (pv. tomato) conserved domain protein, psesx-a0a1c7ywc6Pseudomonas syringae Lipase.
Hydrolase_RBBP9_YdeN : psesy-PSPTO5218Pseudomonas syringae (pv. tomato) conserved hypothetical protein.
Lipase_3 : psesy-PSPTO3485Pseudomonas syringae (pv. tomato) lipase family protein.
LYsophospholipase_carboxylesterase : psesy-ESTAPseudomonas syringae (pv. tomato) carboxylesterase, psesy-PSPTO3306Pseudomonas syringae, phospholipase/carboxylesterase family protein.
Monoglyceridelipase_lysophospholip : psesy-PSPTO5299Pseudomonas syringae (pv. tomato; T1) conserved hypothetical protein, psesy-PSPTO5537Pseudomonas syringae (pv. tomato) conserved hypothetical protein.
NLS3-Tex30 : psesy-PSPTO2005Pseudomonas syringae (pv. tomato); Pseudomonas avellanae conserved domain protein.
PHA_depolymerase_arom : psesy-PHABPseudomonas syringae (pv. tomato) poly(3-hydroxyalkanoate) depolymerase.
PHA_synth_II : psesy-PHACPseudomonas syringae (pv. tomato) poly(3-hydroxyalkanoate) polymerase.
PMH_Peptidase_S9 : psesy-PSPTO0508Pseudomonas syringae (pv. tomato) conserved hypothetical protein.
Proline_iminopeptidase : psesy-PIPPseudomonas syringae, Pseudomonas savastanoi proline iminopeptidase (EC 3.4.11.5), psesy-PSPTO4540 Pseudomonas syringae (pv. tomato; pv. actinidiae; pv. morsprunorum ) proline iminopeptidase, putative.
RsbQ-like : psesy-PSPTO1604Pseudomonas syringae (pv. tomato) hydrolase, putative.
RutD : psesy-PSPTO1154Pseudomonas syringae (pv. tomato) hydrolase, alpha/beta fold family.
S9N_PREPL_Peptidase_S9 : psesy-PSPTO3911Pseudomonas syringae (pv. tomato) protease II.
T6SS-TLE3 : psesx-a0a3m3az29Pseudomonas syringae; Pseudomonas amygdali pv. lachrymans str. DUF3274 domain-containing protein, psesx-w0mzj5Pseudomonas syringae, DUF3274 domain-containing protein.
Thioesterase : psesg-q6tna2Pseudomonas syringae (pv. glycinea) cmat, psesm-IRP1Pseudomonas syringae (pv. tomato) yersiniabactin polyketide/non-ribosomal peptide synthetase, psesy-CFA7Pseudomonas syringae type I polyketide synthase, psesy-CFA9Pseudomonas syringae, thioesterase homolog cfa9, psesy-CMATPseudomonas syringae (pv. glycinea)(and pv. actinidiae) thioesterase, psesy-IRP4Pseudomonas syringae (pv. tomato) yersiniabactin synthetase, thioesterase component, psesy-PSPTO2134Pseudomonas syringae (pv. tomato, syringae, glycinea, phaseolicola), Pseudomonas savastanoi pv. savastanoi, pyoverdine synthetase, thioesterase component, psesy-PSPTO2150Pseudomonas syringae (pv. tomato) Pyoverdine sidechain peptide synthetase IV thioesterase fragment, psesy-PSPTO2830Pseudomonas syringae (pv. tomato) non-ribosomal peptide synthetase, terminal component, psesy-PSPTO4519Pseudomonas syringae (pv. tomato) non-ribosomal peptide synthetase, terminal component, psesy-PSPTO4699Pseudomonas syringae (pv. tomato) non-ribosomal peptide synthetase, terminal component, psesy-SYLDPseudomonas syringae non-ribosomal peptide synthetase (type I polyketide), psesy-SYPCPseudomonas syringae (pv. syringae) syringopeptin synthetase c, psesy-SYREPseudomonas syringae (pv. syringae) syringomycin synthetase Thioesterase domain.
UCP031982 : psesy-PSPTO3135Pseudomonas syringae (pv. tomato; T1;pv. glycinea str. B076; race 4; pv. phaseolicola (strain 1448A / Race 6) pv. syringae (strain B728a)) conserved hypothetical protein.
VirJ : psesx-a0a085upc8Pseudomonas syringae; Pseudomonas sp. Virulence factor family protein, psesx-a0a085vby6Pseudomonas syringae. Virulence factor family protein, psesx-a0a0l1m8t9Pseudomonas syringae; Pseudomonas fluorescens; Pseudomonas sp.. Virulence factor family protein.
YcjY-like : psesy-PSPTO1580Pseudomonas syringae (pv. tomato) conserved hypothetical protein

Title: Comparison of the complete genome sequences of Pseudomonas syringae pv. syringae B728a and pv. tomato DC3000
Feil H, Feil WS, Chain P, Larimer F, DiBartolo G, Copeland A, Lykidis A, Trong S, Nolan M and Lindow SE <10 more author(s)> Feil H, Feil WS, Chain P, Larimer F, DiBartolo G, Copeland A, Lykidis A, Trong S, Nolan M, Goltsman E, Thiel J, Malfatti S, Loper JE, Lapidus A, Detter JC, Land M, Richardson PM, Kyrpides NC, Ivanova N, Lindow SE (- 10)
Ref: Proc Natl Acad Sci U S A, 102:11064, 2005 : PubMed
Abstract


ESTHER: Feil_2005_Proc.Natl.Acad.Sci.U.S.A_102_11064
PubMedSearch: Feil 2005 Proc.Natl.Acad.Sci.U.S.A 102 11064
PubMedID: 16043691
Gene_locus related to this paper: psesm-METX, psesm-q87y20, psesm-q889k3, psesy-PIP, psesy-PSPTO2134, psesy-PSPTO3135, psesy-SYLD, psesy-SYPC, psesy-SYRE, pseu2-q4zlt8, pseu2-q4zm40, pseu2-q4zmb0, pseu2-q4zmc0, pseu2-q4zmh2, pseu2-q4zmw4, pseu2-q4zn59, pseu2-q4znb2, pseu2-q4znm5, pseu2-q4zpb0, pseu2-q4zph7, pseu2-q4zpw6, pseu2-q4zq18, pseu2-q4zq29, pseu2-q4zqk3, pseu2-q4zr46, pseu2-q4zrk3, pseu2-q4zrq0, pseu2-q4zrr1, pseu2-q4zrt9, pseu2-q4zs33, pseu2-q4zs84, pseu2-q4zs88, pseu2-q4zsh3, pseu2-q4zt45, pseu2-q4zt74, pseu2-q4zta6, pseu2-q4zte9, pseu2-q4zts5, pseu2-q4zun8, pseu2-q4zuv2, pseu2-q4zuw1, pseu2-q4zv19, pseu2-q4zv57, pseu2-q4zvi1, pseu2-q4zvi2, pseu2-q4zw50, pseu2-q4zwq3, pseu2-q4zwv7, pseu2-q4zxj5, pseu2-q4zxs0, pseu2-q4zz02, pseu2-q4zzm1, pseu2-q4zzm4, pseu2-q500r7, pseu2-q4zqx8

Abstract

The complete genomic sequence of Pseudomonas syringae pv. syringae B728a (Pss B728a) has been determined and is compared with that of P. syringae pv. tomato DC3000 (Pst DC3000). The two pathovars of this economically important species of plant pathogenic bacteria differ in host range and other interactions with plants, with Pss having a more pronounced epiphytic stage of growth and higher abiotic stress tolerance and Pst DC3000 having a more pronounced apoplastic growth habitat. The Pss B728a genome (6.1 Mb) contains a circular chromosome and no plasmid, whereas the Pst DC3000 genome is 6.5 mbp in size, composed of a circular chromosome and two plasmids. Although a high degree of similarity exists between the two sequenced Pseudomonads, 976 protein-encoding genes are unique to Pss B728a when compared with Pst DC3000, including large genomic islands likely to contribute to virulence and host specificity. Over 375 repetitive extragenic palindromic sequences unique to Pss B728a when compared with Pst DC3000 are widely distributed throughout the chromosome except in 14 genomic islands, which generally had lower GC content than the genome as a whole. Content of the genomic islands varies, with one containing a prophage and another the plasmid pKLC102 of Pseudomonas aeruginosa PAO1. Among the 976 genes of Pss B728a with no counterpart in Pst DC3000 are those encoding for syringopeptin, syringomycin, indole acetic acid biosynthesis, arginine degradation, and production of ice nuclei. The genomic comparison suggests that several unique genes for Pss B728a such as ectoine synthase, DNA repair, and antibiotic production may contribute to the epiphytic fitness and stress tolerance of this organism.



        

Title: Whole-genome sequence analysis of Pseudomonas syringae pv. phaseolicola 1448A reveals divergence among pathovars in genes involved in virulence and transposition
Joardar V, Lindeberg M, Jackson RW, Selengut J, Dodson R, Brinkac LM, Daugherty SC, Deboy R, Durkin AS and Buell CR <22 more author(s)> Joardar V, Lindeberg M, Jackson RW, Selengut J, Dodson R, Brinkac LM, Daugherty SC, Deboy R, Durkin AS, Giglio MG, Madupu R, Nelson WC, Rosovitz MJ, Sullivan S, Crabtree J, Creasy T, Davidsen T, Haft DH, Zafar N, Zhou L, Halpin R, Holley T, Khouri H, Feldblyum T, White O, Fraser CM, Chatterjee AK, Cartinhour S, Schneider DJ, Mansfield J, Collmer A, Buell CR (- 22)
Ref: Journal of Bacteriology, 187:6488, 2005 : PubMed
Abstract


ESTHER: Joardar_2005_J.Bacteriol_187_6488
PubMedSearch: Joardar 2005 J.Bacteriol 187 6488
PubMedID: 16159782
Gene_locus related to this paper: pse14-q48cb3, pse14-q48ck7, pse14-q48cs3, pse14-q48ct2, pse14-q48d82, pse14-q48da3, pse14-q48dj9, pse14-q48dq5, pse14-q48e33, pse14-q48es1, pse14-q48f84, pse14-q48fg2, pse14-q48g47, pse14-q48g51, pse14-q48gq9, pse14-q48h40, pse14-q48ha4, pse14-q48hb4, pse14-q48he1, pse14-q48hq0, pse14-q48hq2, pse14-q48ia0, pse14-q48im0, pse14-q48j48, pse14-q48ji2, pse14-q48k54, pse14-q48k55, pse14-q48k63, pse14-q48kc1, pse14-q48kt9, pse14-q48ku0, pse14-q48lb6, pse14-q48lj1, pse14-q48ln2, pse14-q48m56, pse14-q48mh5, pse14-q48mq7, pse14-q48nt0, pse14-q48p24, pse14-q48pi7, pse14-q48pi8, pse14-q48pi9, pse14-q48pq2, pse14-q48pq5, psesm-METX, psesm-q87y20, psesm-q889k3, psesy-PIP, psesy-PSPTO0162, psesy-PSPTO1766, psesy-PSPTO2134, psesy-PSPTO3135, pseu2-q4zwv7, psesg-e7p3i0

Abstract

Pseudomonas syringae pv. phaseolicola, a gram-negative bacterial plant pathogen, is the causal agent of halo blight of bean. In this study, we report on the genome sequence of P. syringae pv. phaseolicola isolate 1448A, which encodes 5,353 open reading frames (ORFs) on one circular chromosome (5,928,787 bp) and two plasmids (131,950 bp and 51,711 bp). Comparative analyses with a phylogenetically divergent pathovar, P. syringae pv. tomato DC3000, revealed a strong degree of conservation at the gene and genome levels. In total, 4,133 ORFs were identified as putative orthologs in these two pathovars using a reciprocal best-hit method, with 3,941 ORFs present in conserved, syntenic blocks. Although these two pathovars are highly similar at the physiological level, they have distinct host ranges; 1448A causes disease in beans, and DC3000 is pathogenic on tomato and Arabidopsis. Examination of the complement of ORFs encoding virulence, fitness, and survival factors revealed a substantial, but not complete, overlap between these two pathovars. Another distinguishing feature between the two pathovars is their distinctive sets of transposable elements. With access to a fifth complete pseudomonad genome sequence, we were able to identify 3,567 ORFs that likely comprise the core Pseudomonas genome and 365 ORFs that are P. syringae specific.



        

Title: The complete genome sequence of the Arabidopsis and tomato pathogen Pseudomonas syringae pv. tomato DC3000
Buell CR, Joardar V, Lindeberg M, Selengut J, Paulsen IT, Gwinn ML, Dodson RJ, DeBoy RT, Durkin AS and Collmer A <34 more author(s)> Buell CR, Joardar V, Lindeberg M, Selengut J, Paulsen IT, Gwinn ML, Dodson RJ, DeBoy RT, Durkin AS, Kolonay JF, Madupu R, Daugherty S, Brinkac L, Beanan MJ, Haft DH, Nelson WC, Davidsen T, Zafar N, Zhou L, Liu J, Yuan Q, Khouri H, Fedorova N, Tran B, Russell D, Berry K, Utterback T, Van Aken SE, Feldblyum TV, D'Ascenzo M, Deng WL, Ramos AR, Alfano JR, Cartinhour S, Chatterjee AK, Delaney TP, Lazarowitz SG, Martin GB, Schneider DJ, Tang X, Bender CL, White O, Fraser CM, Collmer A (- 34)
Ref: Proc Natl Acad Sci U S A, 100:10181, 2003 : PubMed
Abstract


ESTHER: Buell_2003_Proc.Natl.Acad.Sci.U.S.A_100_10181
PubMedSearch: Buell 2003 Proc.Natl.Acad.Sci.U.S.A 100 10181
PubMedID: 12928499
Gene_locus related to this paper: pse14-q48ia0, psesm-IRP1, psesm-METX, psesm-q87y20, psesm-q88a39, psesm-q881b4, psesm-q889k3, psesy-BIOH, psesy-CFA7, psesy-CFA9, psesy-CMAT, psesy-ESTA, psesy-IRP4, psesy-PHAB, psesy-PHAC, psesy-PHAG1, psesy-PHAG2, psesy-PIP, psesy-PSPTO0162, psesy-PSPTO0421, psesy-PSPTO0508, psesy-PSPTO0675, psesy-PSPTO0715, psesy-PSPTO1154, psesy-PSPTO1504, psesy-PSPTO1559, psesy-PSPTO1580, psesy-PSPTO1604, psesy-PSPTO1677, psesy-PSPTO1766, psesy-PSPTO1863, psesy-PSPTO2042, psesy-PSPTO2134, psesy-PSPTO2150, psesy-PSPTO2209, psesy-PSPTO2217, psesy-PSPTO2218, psesy-PSPTO2293, psesy-PSPTO2495, psesy-PSPTO2674, psesy-PSPTO2830, psesy-PSPTO3135, psesy-PSPTO3138, psesy-PSPTO3264, psesy-PSPTO3282, psesy-PSPTO3306, psesy-PSPTO3485, psesy-PSPTO3572, psesy-PSPTO3911, psesy-PSPTO4089, psesy-PSPTO4178, psesy-PSPTO4277, psesy-PSPTO4430, psesy-PSPTO4519, psesy-PSPTO4540, psesy-PSPTO4699, psesy-PSPTO4708, psesy-PSPTO4781, psesy-PSPTO4843, psesy-PSPTO4964, psesy-PSPTO5218, psesy-PSPTO5299, psesy-PSPTO5448, psesy-PSPTO5537, psesy-SYLD, psesy-SYPC, psesy-SYRE, psesm-q87v84

Abstract

We report the complete genome sequence of the model bacterial pathogen Pseudomonas syringae pathovar tomato DC3000 (DC3000), which is pathogenic on tomato and Arabidopsis thaliana. The DC3000 genome (6.5 megabases) contains a circular chromosome and two plasmids, which collectively encode 5,763 ORFs. We identified 298 established and putative virulence genes, including several clusters of genes encoding 31 confirmed and 19 predicted type III secretion system effector proteins. Many of the virulence genes were members of paralogous families and also were proximal to mobile elements, which collectively comprise 7% of the DC3000 genome. The bacterium possesses a large repertoire of transporters for the acquisition of nutrients, particularly sugars, as well as genes implicated in attachment to plant surfaces. Over 12% of the genes are dedicated to regulation, which may reflect the need for rapid adaptation to the diverse environments encountered during epiphytic growth and pathogenesis. Comparative analyses confirmed a high degree of similarity with two sequenced pseudomonads, Pseudomonas putida and Pseudomonas aeruginosa, yet revealed 1,159 genes unique to DC3000, of which 811 lack a known function.